X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.1
Temperature 293.0
Details MPD, calcium chloride, bis-tris buffer pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.46 α = 90
b = 78.46 β = 90
c = 101.42 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAC Science DIP-2000 mirrors --
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS + NI FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE ENRAF-NONIUS FR591 1.5418 -- --

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.98 21 99.6 0.081 0.081 -- 13.7 -- 106289 0.0 -3.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.98 3.03 100.0 0.34 0.34 7.9 -- 372

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.98 21.0 -- 0.0 7725 7685 728 99.5 -- -- 0.226 0.266 SAME SET AS USED FOR REFINEMENT OF 1QD5. THAT SET WAS SELECTED RANDOMLY.
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ANISOTROPIC
Anisotropic B[1][1] -6.429
Anisotropic B[1][2] -10.776
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.429
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 12.858
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 25.9
c_angle_d 1.5
c_bond_d 0.007
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2128
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 43

Software

Software
Software Name Purpose
AMoRE phasing
CNS refinement
DENZO data reduction
SCALEPACK data scaling
CCP4 data scaling version: (TRUNCATE)